Multiple sequence alignment - TraesCS2D01G478300

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Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS2D01G478300 chr2D 100.000 6207 0 0 1 6207 579762097 579755891 0.000000e+00 11463.0
1 TraesCS2D01G478300 chr2D 80.029 1372 221 35 4093 5440 622843181 622841839 0.000000e+00 966.0
2 TraesCS2D01G478300 chr2D 79.792 673 97 20 1107 1740 622845858 622845186 2.640000e-123 453.0
3 TraesCS2D01G478300 chr2D 79.425 661 90 23 5554 6200 579747216 579746588 5.750000e-115 425.0
4 TraesCS2D01G478300 chr2D 94.510 255 14 0 601 855 535240039 535240293 1.620000e-105 394.0
5 TraesCS2D01G478300 chr2D 93.307 254 17 0 601 854 395940448 395940195 5.870000e-100 375.0
6 TraesCS2D01G478300 chr2D 92.941 255 18 0 604 858 8321282 8321028 7.600000e-99 372.0
7 TraesCS2D01G478300 chr2D 90.244 205 19 1 3116 3320 622843869 622843666 3.690000e-67 267.0
8 TraesCS2D01G478300 chr2D 82.051 234 31 5 1933 2162 622844972 622844746 8.210000e-44 189.0
9 TraesCS2D01G478300 chr2B 95.587 2674 69 26 2640 5282 697709840 697707185 0.000000e+00 4239.0
10 TraesCS2D01G478300 chr2B 93.920 1546 68 5 867 2388 697714320 697712777 0.000000e+00 2311.0
11 TraesCS2D01G478300 chr2B 93.878 343 11 1 5863 6205 697702199 697701867 5.550000e-140 508.0
12 TraesCS2D01G478300 chr2B 94.304 316 13 3 5332 5647 697707050 697706740 4.350000e-131 479.0
13 TraesCS2D01G478300 chr2B 88.931 262 12 10 87 334 697715411 697715153 2.170000e-79 307.0
14 TraesCS2D01G478300 chr2B 97.546 163 4 0 5646 5808 697705501 697705339 4.740000e-71 279.0
15 TraesCS2D01G478300 chr2B 88.780 205 16 6 2374 2574 697710319 697710118 1.730000e-60 244.0
16 TraesCS2D01G478300 chr2B 89.444 180 8 4 334 502 697715124 697714945 3.770000e-52 217.0
17 TraesCS2D01G478300 chr2A 92.719 1964 105 22 3705 5651 717386223 717384281 0.000000e+00 2800.0
18 TraesCS2D01G478300 chr2A 93.630 1460 74 8 2240 3683 717387664 717386208 0.000000e+00 2163.0
19 TraesCS2D01G478300 chr2A 94.937 1343 58 7 853 2189 717389077 717387739 0.000000e+00 2095.0
20 TraesCS2D01G478300 chr2A 93.676 253 16 0 604 856 578489067 578488815 4.540000e-101 379.0
21 TraesCS2D01G478300 chr2A 85.634 355 29 11 1 334 717389788 717389435 2.750000e-93 353.0
22 TraesCS2D01G478300 chr2A 82.530 332 42 12 5882 6199 717291062 717290733 1.700000e-70 278.0
23 TraesCS2D01G478300 chr2A 93.491 169 9 2 5732 5899 717310273 717310106 3.710000e-62 250.0
24 TraesCS2D01G478300 chr2A 91.329 173 13 2 334 505 717389405 717389234 1.040000e-57 235.0
25 TraesCS2D01G478300 chr2A 88.462 104 7 4 500 602 717389193 717389094 3.040000e-23 121.0
26 TraesCS2D01G478300 chr1D 78.650 1363 230 43 4095 5440 464238901 464237583 0.000000e+00 848.0
27 TraesCS2D01G478300 chr1A 78.223 1373 234 42 4088 5440 556588665 556587338 0.000000e+00 819.0
28 TraesCS2D01G478300 chr7D 78.874 1297 203 39 4103 5363 631848877 631850138 0.000000e+00 811.0
29 TraesCS2D01G478300 chr7D 82.721 463 71 8 4097 4555 631760730 631761187 2.690000e-108 403.0
30 TraesCS2D01G478300 chr7D 78.871 620 92 17 1154 1734 631846097 631846716 3.510000e-102 383.0
31 TraesCS2D01G478300 chr7D 88.372 215 19 4 3111 3320 631848094 631848307 2.870000e-63 254.0
32 TraesCS2D01G478300 chr7A 78.003 1382 209 66 4093 5401 736524380 736523021 0.000000e+00 780.0
33 TraesCS2D01G478300 chr7A 80.295 543 77 15 1160 1672 736527124 736526582 3.510000e-102 383.0
34 TraesCS2D01G478300 chr7A 81.562 461 79 4 4097 4555 736569675 736569219 5.870000e-100 375.0
35 TraesCS2D01G478300 chr7A 87.037 216 23 3 3109 3320 736525220 736525006 8.040000e-59 239.0
36 TraesCS2D01G478300 chr7A 96.078 51 1 1 263 313 671977502 671977453 1.430000e-11 82.4
37 TraesCS2D01G478300 chr7B 77.662 1249 204 50 4093 5285 743410698 743411927 0.000000e+00 691.0
38 TraesCS2D01G478300 chr7B 94.118 255 15 0 601 855 467996942 467997196 7.550000e-104 388.0
39 TraesCS2D01G478300 chr7B 84.158 404 49 6 1343 1731 743408188 743408591 1.630000e-100 377.0
40 TraesCS2D01G478300 chr4D 98.431 255 4 0 601 855 483175810 483176064 3.410000e-122 449.0
41 TraesCS2D01G478300 chr6A 94.821 251 13 0 604 854 187738704 187738954 5.830000e-105 392.0
42 TraesCS2D01G478300 chr6A 85.380 171 25 0 3145 3315 611853560 611853730 1.780000e-40 178.0
43 TraesCS2D01G478300 chr6D 94.024 251 14 1 604 854 444471223 444470974 4.540000e-101 379.0
44 TraesCS2D01G478300 chr6D 93.307 254 17 0 601 854 450529011 450529264 5.870000e-100 375.0
45 TraesCS2D01G478300 chr6D 85.380 171 25 0 3145 3315 465205121 465205291 1.780000e-40 178.0
46 TraesCS2D01G478300 chr6B 85.965 171 24 0 3145 3315 710098831 710099001 3.820000e-42 183.0
47 TraesCS2D01G478300 chr3B 89.041 73 8 0 241 313 730368238 730368310 2.380000e-14 91.6
48 TraesCS2D01G478300 chr5B 96.078 51 1 1 263 313 713063507 713063458 1.430000e-11 82.4
49 TraesCS2D01G478300 chr5D 97.059 34 1 0 2385 2418 54932057 54932024 2.420000e-04 58.4


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS2D01G478300 chr2D 579755891 579762097 6206 True 11463.000000 11463 100.000000 1 6207 1 chr2D.!!$R4 6206
1 TraesCS2D01G478300 chr2D 622841839 622845858 4019 True 468.750000 966 83.029000 1107 5440 4 chr2D.!!$R5 4333
2 TraesCS2D01G478300 chr2D 579746588 579747216 628 True 425.000000 425 79.425000 5554 6200 1 chr2D.!!$R3 646
3 TraesCS2D01G478300 chr2B 697701867 697715411 13544 True 1073.000000 4239 92.798750 87 6205 8 chr2B.!!$R1 6118
4 TraesCS2D01G478300 chr2A 717384281 717389788 5507 True 1294.500000 2800 91.118500 1 5651 6 chr2A.!!$R4 5650
5 TraesCS2D01G478300 chr1D 464237583 464238901 1318 True 848.000000 848 78.650000 4095 5440 1 chr1D.!!$R1 1345
6 TraesCS2D01G478300 chr1A 556587338 556588665 1327 True 819.000000 819 78.223000 4088 5440 1 chr1A.!!$R1 1352
7 TraesCS2D01G478300 chr7D 631846097 631850138 4041 False 482.666667 811 82.039000 1154 5363 3 chr7D.!!$F2 4209
8 TraesCS2D01G478300 chr7A 736523021 736527124 4103 True 467.333333 780 81.778333 1160 5401 3 chr7A.!!$R3 4241
9 TraesCS2D01G478300 chr7B 743408188 743411927 3739 False 534.000000 691 80.910000 1343 5285 2 chr7B.!!$F2 3942

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
96 97 0.249489 ATCATCGTTGTAGGCGAGGC 60.249 55.000 0.00 0.0 41.83 4.70 F
1799 2353 0.390472 GCGAGTTTGTCCAGGAGGAG 60.390 60.000 0.00 0.0 46.92 3.69 F
2585 6039 0.034059 CAGATATCTCCGTGCCCCAC 59.966 60.000 1.03 0.0 0.00 4.61 F
2594 6048 0.678950 CCGTGCCCCACAAGATTTTT 59.321 50.000 0.00 0.0 33.40 1.94 F
3733 7833 3.245052 ACTGTTGCTTGAGCTCCCTATTT 60.245 43.478 12.15 0.0 42.66 1.40 F
4201 8340 2.721425 TGAAAGGTTCGTCTTTGGGT 57.279 45.000 6.05 0.0 37.13 4.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2083 2667 0.539051 ATCGTCTCTCCAGGCCTTTG 59.461 55.000 0.00 0.0 0.00 2.77 R
2638 6304 1.483415 GGCGTAATCCTCCCAACTGTA 59.517 52.381 0.00 0.0 0.00 2.74 R
3707 7807 3.084786 GGGAGCTCAAGCAACAGTTAAT 58.915 45.455 17.19 0.0 45.16 1.40 R
3991 8106 4.275936 AGATTGAAGGAAATTAATCCGCCG 59.724 41.667 0.00 0.0 44.60 6.46 R
4795 8994 0.959372 CTGTGCCTGGAAGCAGAAGG 60.959 60.000 0.00 0.0 45.14 3.46 R
5885 14617 0.698238 TGGTATGCCCTTTGAGTGCT 59.302 50.000 0.00 0.0 0.00 4.40 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
39 40 3.738399 CGACTCGGATTAGAAGATAGCG 58.262 50.000 0.00 0.00 0.00 4.26
50 51 0.535335 AAGATAGCGAACTTGCCCGA 59.465 50.000 0.00 0.00 34.65 5.14
53 54 1.090052 ATAGCGAACTTGCCCGAAGC 61.090 55.000 0.00 0.00 44.14 3.86
54 55 2.167398 TAGCGAACTTGCCCGAAGCT 62.167 55.000 0.00 0.00 44.23 3.74
55 56 1.740296 GCGAACTTGCCCGAAGCTA 60.740 57.895 0.00 0.00 44.23 3.32
60 61 3.551259 CTTGCCCGAAGCTAGGAAA 57.449 52.632 9.53 0.56 44.23 3.13
67 68 1.212616 CGAAGCTAGGAAAGATGCGG 58.787 55.000 0.00 0.00 39.09 5.69
85 86 3.566853 CTGCCGCGCATCATCGTT 61.567 61.111 8.75 0.00 38.13 3.85
92 93 1.559814 CGCATCATCGTTGTAGGCG 59.440 57.895 12.08 12.08 36.93 5.52
96 97 0.249489 ATCATCGTTGTAGGCGAGGC 60.249 55.000 0.00 0.00 41.83 4.70
183 184 4.478686 AGCCAGGAATGTACTCCCTTTATT 59.521 41.667 0.00 0.00 35.95 1.40
242 260 3.889538 TCATTTAGCGAGCTAGCCTCTAA 59.110 43.478 15.76 13.09 38.49 2.10
245 263 2.642154 AGCGAGCTAGCCTCTAAGTA 57.358 50.000 15.76 0.00 38.49 2.24
268 286 9.998106 AGTAAGAGTTTCATTTTAGCTTCTACA 57.002 29.630 0.00 0.00 0.00 2.74
274 292 7.284489 AGTTTCATTTTAGCTTCTACAACACCA 59.716 33.333 0.00 0.00 0.00 4.17
375 427 2.267642 CGGAAGCATGAACGGGGA 59.732 61.111 0.00 0.00 0.00 4.81
420 482 1.225704 GTGAGGCAAGGATGGGAGG 59.774 63.158 0.00 0.00 0.00 4.30
479 541 3.123621 CCGAGGAAAAATCAGTCGACTTG 59.876 47.826 17.26 11.78 32.32 3.16
491 554 2.094494 AGTCGACTTGCATGTAGTCCAG 60.094 50.000 13.58 9.89 39.03 3.86
505 568 5.258841 TGTAGTCCAGTGCTAAGCTAGTAA 58.741 41.667 0.00 0.00 0.00 2.24
513 623 6.294564 CCAGTGCTAAGCTAGTAATAATCGGA 60.295 42.308 0.00 0.00 0.00 4.55
516 626 6.921857 GTGCTAAGCTAGTAATAATCGGAACA 59.078 38.462 0.00 0.00 0.00 3.18
522 632 6.924060 AGCTAGTAATAATCGGAACACATCAC 59.076 38.462 0.00 0.00 0.00 3.06
546 656 2.632544 CCGCGACGCCCCTATGATA 61.633 63.158 15.34 0.00 0.00 2.15
547 657 1.443872 CGCGACGCCCCTATGATAC 60.444 63.158 15.34 0.00 0.00 2.24
551 661 0.956633 GACGCCCCTATGATACGACA 59.043 55.000 0.00 0.00 0.00 4.35
553 663 1.068127 ACGCCCCTATGATACGACAAC 59.932 52.381 0.00 0.00 0.00 3.32
554 664 1.340248 CGCCCCTATGATACGACAACT 59.660 52.381 0.00 0.00 0.00 3.16
555 665 2.555325 CGCCCCTATGATACGACAACTA 59.445 50.000 0.00 0.00 0.00 2.24
556 666 3.005050 CGCCCCTATGATACGACAACTAA 59.995 47.826 0.00 0.00 0.00 2.24
557 667 4.321750 CGCCCCTATGATACGACAACTAAT 60.322 45.833 0.00 0.00 0.00 1.73
558 668 5.548406 GCCCCTATGATACGACAACTAATT 58.452 41.667 0.00 0.00 0.00 1.40
560 670 7.156673 GCCCCTATGATACGACAACTAATTAA 58.843 38.462 0.00 0.00 0.00 1.40
602 1033 5.847304 ACATACGCACACATATCAAGATCT 58.153 37.500 0.00 0.00 0.00 2.75
603 1034 5.693555 ACATACGCACACATATCAAGATCTG 59.306 40.000 0.00 0.00 0.00 2.90
604 1035 4.128925 ACGCACACATATCAAGATCTGT 57.871 40.909 0.00 0.00 0.00 3.41
605 1036 4.507710 ACGCACACATATCAAGATCTGTT 58.492 39.130 0.00 0.00 0.00 3.16
607 1038 5.412594 ACGCACACATATCAAGATCTGTTTT 59.587 36.000 0.00 0.00 0.00 2.43
610 1041 8.124823 CGCACACATATCAAGATCTGTTTTTAT 58.875 33.333 0.00 0.00 0.00 1.40
635 1066 8.856153 TTTACTTCACATATTAGCTTTGGTCA 57.144 30.769 0.00 0.00 0.00 4.02
636 1067 8.856153 TTACTTCACATATTAGCTTTGGTCAA 57.144 30.769 0.00 0.00 0.00 3.18
637 1068 7.759489 ACTTCACATATTAGCTTTGGTCAAA 57.241 32.000 0.00 0.00 0.00 2.69
653 1084 8.865590 TTTGGTCAAAGTCAAGCTTTATAAAC 57.134 30.769 0.00 0.00 44.95 2.01
654 1085 7.817418 TGGTCAAAGTCAAGCTTTATAAACT 57.183 32.000 0.00 0.00 44.95 2.66
656 1087 8.691797 TGGTCAAAGTCAAGCTTTATAAACTTT 58.308 29.630 0.00 5.64 44.95 2.66
737 1168 8.808529 AGATTCATTATTGAACGTACTTTCTCG 58.191 33.333 12.72 0.00 44.36 4.04
738 1169 7.878477 TTCATTATTGAACGTACTTTCTCGT 57.122 32.000 12.72 2.69 42.12 4.18
739 1170 7.502177 TCATTATTGAACGTACTTTCTCGTC 57.498 36.000 12.72 0.00 39.39 4.20
740 1171 7.085746 TCATTATTGAACGTACTTTCTCGTCA 58.914 34.615 12.72 0.00 39.39 4.35
741 1172 7.758076 TCATTATTGAACGTACTTTCTCGTCAT 59.242 33.333 12.72 1.72 39.39 3.06
742 1173 9.016623 CATTATTGAACGTACTTTCTCGTCATA 57.983 33.333 12.72 0.96 39.39 2.15
743 1174 9.745880 ATTATTGAACGTACTTTCTCGTCATAT 57.254 29.630 12.72 0.17 39.39 1.78
745 1176 8.783999 ATTGAACGTACTTTCTCGTCATATAG 57.216 34.615 12.72 0.00 39.39 1.31
746 1177 7.543947 TGAACGTACTTTCTCGTCATATAGA 57.456 36.000 12.72 0.00 39.39 1.98
747 1178 8.151141 TGAACGTACTTTCTCGTCATATAGAT 57.849 34.615 12.72 0.00 39.39 1.98
748 1179 8.618677 TGAACGTACTTTCTCGTCATATAGATT 58.381 33.333 12.72 0.00 39.39 2.40
749 1180 9.448294 GAACGTACTTTCTCGTCATATAGATTT 57.552 33.333 4.91 0.00 39.39 2.17
750 1181 9.798994 AACGTACTTTCTCGTCATATAGATTTT 57.201 29.630 0.00 0.00 39.39 1.82
751 1182 9.798994 ACGTACTTTCTCGTCATATAGATTTTT 57.201 29.630 0.00 0.00 35.30 1.94
830 1261 7.462109 GACTTCAGTCAACTCTAATATGCAG 57.538 40.000 1.86 0.00 44.18 4.41
831 1262 7.175347 ACTTCAGTCAACTCTAATATGCAGA 57.825 36.000 0.00 0.00 0.00 4.26
832 1263 7.264221 ACTTCAGTCAACTCTAATATGCAGAG 58.736 38.462 11.37 11.37 44.28 3.35
848 1279 5.873179 TGCAGAGTAAATAAAAACGGAGG 57.127 39.130 0.00 0.00 0.00 4.30
849 1280 4.698304 TGCAGAGTAAATAAAAACGGAGGG 59.302 41.667 0.00 0.00 0.00 4.30
850 1281 4.939439 GCAGAGTAAATAAAAACGGAGGGA 59.061 41.667 0.00 0.00 0.00 4.20
851 1282 5.064834 GCAGAGTAAATAAAAACGGAGGGAG 59.935 44.000 0.00 0.00 0.00 4.30
852 1283 6.171213 CAGAGTAAATAAAAACGGAGGGAGT 58.829 40.000 0.00 0.00 0.00 3.85
853 1284 7.325694 CAGAGTAAATAAAAACGGAGGGAGTA 58.674 38.462 0.00 0.00 0.00 2.59
854 1285 7.277319 CAGAGTAAATAAAAACGGAGGGAGTAC 59.723 40.741 0.00 0.00 0.00 2.73
855 1286 7.008021 AGTAAATAAAAACGGAGGGAGTACA 57.992 36.000 0.00 0.00 0.00 2.90
856 1287 7.452562 AGTAAATAAAAACGGAGGGAGTACAA 58.547 34.615 0.00 0.00 0.00 2.41
857 1288 6.564709 AAATAAAAACGGAGGGAGTACAAC 57.435 37.500 0.00 0.00 0.00 3.32
858 1289 2.556144 AAAACGGAGGGAGTACAACC 57.444 50.000 0.00 0.00 0.00 3.77
859 1290 1.426751 AAACGGAGGGAGTACAACCA 58.573 50.000 8.35 0.00 0.00 3.67
860 1291 0.683412 AACGGAGGGAGTACAACCAC 59.317 55.000 8.35 2.33 0.00 4.16
947 1378 4.697514 ACTCTTGGTCGATTCATGTATGG 58.302 43.478 0.00 0.00 0.00 2.74
962 1393 7.936496 TCATGTATGGATATGTCTCTCTCTC 57.064 40.000 0.00 0.00 0.00 3.20
963 1394 7.697946 TCATGTATGGATATGTCTCTCTCTCT 58.302 38.462 0.00 0.00 0.00 3.10
1017 1448 2.749044 ATGCAAGGCAGGACAGCG 60.749 61.111 0.00 0.00 43.65 5.18
1092 1523 1.082756 CGCTGCTTCGTGGACAAAC 60.083 57.895 0.00 0.00 0.00 2.93
1101 1532 1.070786 GTGGACAAACTCTGCCGGA 59.929 57.895 5.05 0.00 0.00 5.14
1323 1769 1.435577 GCGAAGGAACGTACACCAAT 58.564 50.000 8.62 0.00 35.59 3.16
1332 1805 1.451387 GTACACCAATGGCTCCCCG 60.451 63.158 0.00 0.00 0.00 5.73
1530 2015 4.048470 GGCAAGGGGGTCCTCACC 62.048 72.222 0.00 0.00 44.07 4.02
1799 2353 0.390472 GCGAGTTTGTCCAGGAGGAG 60.390 60.000 0.00 0.00 46.92 3.69
1920 2474 1.984570 TCCTGCGGGTCCTGAGAAG 60.985 63.158 12.43 0.00 0.00 2.85
2083 2667 0.394899 CAGGAAGGTGAAGGATGCCC 60.395 60.000 0.00 0.00 0.00 5.36
2130 2714 0.461961 GGCACAGGAGCTACGATCTT 59.538 55.000 0.00 0.00 34.17 2.40
2221 2826 2.774439 ACATCCGTTTGAGCAACAAC 57.226 45.000 0.00 0.00 38.29 3.32
2229 2834 4.911610 CCGTTTGAGCAACAACTAATTCTG 59.088 41.667 0.00 0.00 38.29 3.02
2230 2835 4.379793 CGTTTGAGCAACAACTAATTCTGC 59.620 41.667 0.00 0.00 38.29 4.26
2233 2838 3.058983 TGAGCAACAACTAATTCTGCACG 60.059 43.478 0.00 0.00 35.44 5.34
2235 2840 2.584791 CAACAACTAATTCTGCACGGC 58.415 47.619 0.00 0.00 0.00 5.68
2238 2843 0.036765 AACTAATTCTGCACGGCGGA 60.037 50.000 13.24 3.61 42.66 5.54
2392 5837 3.053170 ACTCAAGGTTTTGGTTACCAGGT 60.053 43.478 3.65 0.00 38.16 4.00
2550 6004 4.089408 TGGTAATAGCCCGGTATTTTCC 57.911 45.455 0.00 6.30 0.00 3.13
2575 6029 1.269998 AGCGCGGTAACCAGATATCTC 59.730 52.381 10.12 0.00 0.00 2.75
2576 6030 1.669211 GCGCGGTAACCAGATATCTCC 60.669 57.143 8.83 0.00 0.00 3.71
2585 6039 0.034059 CAGATATCTCCGTGCCCCAC 59.966 60.000 1.03 0.00 0.00 4.61
2591 6045 1.002134 CTCCGTGCCCCACAAGATT 60.002 57.895 0.00 0.00 33.40 2.40
2594 6048 0.678950 CCGTGCCCCACAAGATTTTT 59.321 50.000 0.00 0.00 33.40 1.94
2623 6077 6.183360 TGCATACAGAATCAAAAACCTTGGTT 60.183 34.615 0.00 0.00 0.00 3.67
2624 6078 6.705825 GCATACAGAATCAAAAACCTTGGTTT 59.294 34.615 11.60 11.60 0.00 3.27
2638 6304 6.947376 ACCTTGGTTTTACTACTCAGGTAT 57.053 37.500 0.00 0.00 32.24 2.73
2817 6492 3.781079 TTTCAGGTTTGTGCTTCACTG 57.219 42.857 0.00 0.00 35.11 3.66
2829 6504 4.037690 GTGCTTCACTGTTCATTCAACAC 58.962 43.478 0.00 0.00 40.29 3.32
2831 6506 3.849645 GCTTCACTGTTCATTCAACACGG 60.850 47.826 0.00 0.00 40.29 4.94
2923 6680 8.416485 ACATTCGTATAACTTAGCTTAACACC 57.584 34.615 0.00 0.00 0.00 4.16
3368 7348 5.507637 AGCAAGATTCAAATGATCTGGAGT 58.492 37.500 0.00 0.00 0.00 3.85
3691 7791 7.750458 ACATTATTAACTGTTGCTGACATTTCG 59.250 33.333 2.69 0.00 37.69 3.46
3696 7796 5.186996 ACTGTTGCTGACATTTCGAAAAT 57.813 34.783 15.66 6.19 37.69 1.82
3699 7799 7.370383 ACTGTTGCTGACATTTCGAAAATAAT 58.630 30.769 15.66 0.36 37.69 1.28
3701 7801 9.340695 CTGTTGCTGACATTTCGAAAATAATAA 57.659 29.630 15.66 2.44 37.69 1.40
3702 7802 9.853555 TGTTGCTGACATTTCGAAAATAATAAT 57.146 25.926 15.66 0.00 32.00 1.28
3733 7833 3.245052 ACTGTTGCTTGAGCTCCCTATTT 60.245 43.478 12.15 0.00 42.66 1.40
3830 7934 9.533253 ACCTTCTTATTTTGTTCATGTCAAAAG 57.467 29.630 23.68 16.23 44.27 2.27
4011 8130 3.349022 ACGGCGGATTAATTTCCTTCAA 58.651 40.909 13.24 0.00 33.30 2.69
4100 8239 7.222872 TGGTAGAAACTAAACCGTGGATTTTA 58.777 34.615 0.00 0.00 35.98 1.52
4201 8340 2.721425 TGAAAGGTTCGTCTTTGGGT 57.279 45.000 6.05 0.00 37.13 4.51
4367 8530 9.072375 TCATGACCATTTATCTTTGTAACAACA 57.928 29.630 0.00 0.00 0.00 3.33
4384 8556 8.140628 TGTAACAACAATGCTATGTTCATGTTT 58.859 29.630 12.77 3.79 41.44 2.83
4387 8559 7.208777 ACAACAATGCTATGTTCATGTTTTGA 58.791 30.769 4.95 0.00 41.44 2.69
4607 8795 5.451023 CGTATGTTGTCCAAATAACGCATTC 59.549 40.000 0.00 0.00 29.67 2.67
4608 8796 5.643379 ATGTTGTCCAAATAACGCATTCT 57.357 34.783 0.00 0.00 29.67 2.40
4759 8958 3.043999 GCACATAAGGGGGAGCCGT 62.044 63.158 0.00 0.00 0.00 5.68
4795 8994 3.324117 GGGTTGTTTCGAGGAAGTAGAC 58.676 50.000 0.00 0.00 0.00 2.59
4867 9076 3.067742 CCATCCTCATGTTCTTCCAATGC 59.932 47.826 0.00 0.00 0.00 3.56
4868 9077 3.726557 TCCTCATGTTCTTCCAATGCT 57.273 42.857 0.00 0.00 0.00 3.79
4869 9078 4.842531 TCCTCATGTTCTTCCAATGCTA 57.157 40.909 0.00 0.00 0.00 3.49
4870 9079 5.178096 TCCTCATGTTCTTCCAATGCTAA 57.822 39.130 0.00 0.00 0.00 3.09
4871 9080 5.569355 TCCTCATGTTCTTCCAATGCTAAA 58.431 37.500 0.00 0.00 0.00 1.85
4872 9081 6.189859 TCCTCATGTTCTTCCAATGCTAAAT 58.810 36.000 0.00 0.00 0.00 1.40
4873 9082 6.095860 TCCTCATGTTCTTCCAATGCTAAATG 59.904 38.462 0.00 0.00 0.00 2.32
4951 9167 1.453928 GCTAGGGGTCAACATGCCC 60.454 63.158 0.00 0.00 44.09 5.36
4971 9187 1.082690 GCAAGAGCGGAGAAAGAAGG 58.917 55.000 0.00 0.00 0.00 3.46
5056 9285 7.828223 GGGATCATTGATATTCTGCAGAAGTAT 59.172 37.037 31.14 25.41 37.48 2.12
5235 9477 3.474798 TCTTTCCTCCTCTCTGGCTAA 57.525 47.619 0.00 0.00 35.26 3.09
5313 9675 3.244526 TGTGCATGTGTATGGTTGAGACT 60.245 43.478 0.00 0.00 34.79 3.24
5409 9782 6.185114 TGAATGGATTTGGTTGTGGATTTT 57.815 33.333 0.00 0.00 0.00 1.82
5434 9807 5.003804 GTCATATTGACTTGACCAACCACT 58.996 41.667 0.45 0.00 43.73 4.00
5475 9848 1.751927 CCTGCTCATTGGCACCCTC 60.752 63.158 0.00 0.00 37.29 4.30
5476 9849 1.751927 CTGCTCATTGGCACCCTCC 60.752 63.158 0.00 0.00 37.29 4.30
5477 9850 2.207501 CTGCTCATTGGCACCCTCCT 62.208 60.000 0.00 0.00 37.29 3.69
5510 9883 1.404843 AGAGCCTTAGCCTTAGTCGG 58.595 55.000 0.00 0.00 41.25 4.79
5619 9992 3.609853 CTTTGGCTATGCACTTGTCCTA 58.390 45.455 0.00 0.00 0.00 2.94
5726 11339 7.703945 GTGAAACATAGGGCGAGGAGCTTAT 62.704 48.000 0.00 0.00 41.21 1.73
5758 11371 2.492881 CCTTGTGCTTGCCATTGATGTA 59.507 45.455 0.00 0.00 0.00 2.29
5821 11435 3.775261 AAGCCAAATGGATGCTTTTGT 57.225 38.095 19.53 4.46 42.37 2.83
5825 11439 3.187022 GCCAAATGGATGCTTTTGTGTTC 59.813 43.478 19.53 6.69 37.39 3.18
5829 11443 2.852449 TGGATGCTTTTGTGTTCGGTA 58.148 42.857 0.00 0.00 0.00 4.02
5840 11454 3.271729 TGTGTTCGGTAACTTGCTTCAA 58.728 40.909 0.00 0.00 36.51 2.69
6041 14778 8.311395 AGTGATCACCGTATATGGATAATCAT 57.689 34.615 22.21 9.62 0.00 2.45
6189 14934 4.019051 CAGATATGCCCCCATCAGTGATTA 60.019 45.833 1.86 0.00 32.85 1.75
6205 14950 7.097192 TCAGTGATTATGTAAGTGACTCAACC 58.903 38.462 0.00 0.00 0.00 3.77
6206 14951 6.873605 CAGTGATTATGTAAGTGACTCAACCA 59.126 38.462 0.00 0.00 0.00 3.67
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
18 19 3.432592 TCGCTATCTTCTAATCCGAGTCG 59.567 47.826 5.29 5.29 0.00 4.18
39 40 0.249398 TCCTAGCTTCGGGCAAGTTC 59.751 55.000 0.00 0.00 44.79 3.01
50 51 0.543749 AGCCGCATCTTTCCTAGCTT 59.456 50.000 0.00 0.00 0.00 3.74
53 54 1.162800 GGCAGCCGCATCTTTCCTAG 61.163 60.000 0.00 0.00 41.24 3.02
54 55 1.153168 GGCAGCCGCATCTTTCCTA 60.153 57.895 0.00 0.00 41.24 2.94
55 56 2.439156 GGCAGCCGCATCTTTCCT 60.439 61.111 0.00 0.00 41.24 3.36
78 79 1.141019 GCCTCGCCTACAACGATGA 59.859 57.895 0.00 0.00 39.12 2.92
80 81 1.153628 GTGCCTCGCCTACAACGAT 60.154 57.895 0.00 0.00 39.12 3.73
83 84 2.033194 GTGGTGCCTCGCCTACAAC 61.033 63.158 0.00 0.00 34.70 3.32
84 85 0.901114 TAGTGGTGCCTCGCCTACAA 60.901 55.000 0.00 0.00 34.70 2.41
85 86 0.901114 TTAGTGGTGCCTCGCCTACA 60.901 55.000 0.00 0.00 34.70 2.74
92 93 3.838244 TGGACATATTAGTGGTGCCTC 57.162 47.619 0.00 0.00 0.00 4.70
96 97 7.095774 GCTAACGTTATGGACATATTAGTGGTG 60.096 40.741 8.76 0.00 0.00 4.17
208 209 5.221891 TCGCTAAATGATGCTCTTTTGTC 57.778 39.130 7.05 0.00 0.00 3.18
218 221 2.992543 GAGGCTAGCTCGCTAAATGATG 59.007 50.000 15.72 0.00 0.00 3.07
242 260 9.998106 TGTAGAAGCTAAAATGAAACTCTTACT 57.002 29.630 0.00 0.00 0.00 2.24
245 263 9.120538 TGTTGTAGAAGCTAAAATGAAACTCTT 57.879 29.630 0.00 0.00 0.00 2.85
268 286 2.671070 CTCATCCCGCCTGGTGTT 59.329 61.111 6.49 0.00 34.77 3.32
274 292 4.115199 GGGTTGCTCATCCCGCCT 62.115 66.667 0.61 0.00 33.97 5.52
446 508 0.323360 TTTCCTCGGCCCTTGGATTG 60.323 55.000 0.00 0.00 0.00 2.67
479 541 1.936547 GCTTAGCACTGGACTACATGC 59.063 52.381 0.00 0.00 35.32 4.06
491 554 6.921857 TGTTCCGATTATTACTAGCTTAGCAC 59.078 38.462 7.07 0.00 0.00 4.40
505 568 3.206150 GGCTGTGATGTGTTCCGATTAT 58.794 45.455 0.00 0.00 0.00 1.28
513 623 2.260869 GCGGTGGCTGTGATGTGTT 61.261 57.895 0.00 0.00 35.83 3.32
516 626 4.002506 TCGCGGTGGCTGTGATGT 62.003 61.111 6.13 0.00 36.88 3.06
546 656 8.308931 TCAAGAGTGGTATTAATTAGTTGTCGT 58.691 33.333 0.00 0.00 0.00 4.34
547 657 8.697846 TCAAGAGTGGTATTAATTAGTTGTCG 57.302 34.615 0.00 0.00 0.00 4.35
560 670 7.385205 GCGTATGTATGAAATCAAGAGTGGTAT 59.615 37.037 0.00 0.00 0.00 2.73
562 672 5.523916 GCGTATGTATGAAATCAAGAGTGGT 59.476 40.000 0.00 0.00 0.00 4.16
610 1041 8.856153 TGACCAAAGCTAATATGTGAAGTAAA 57.144 30.769 0.00 0.00 0.00 2.01
612 1043 8.856153 TTTGACCAAAGCTAATATGTGAAGTA 57.144 30.769 0.00 0.00 0.00 2.24
613 1044 7.759489 TTTGACCAAAGCTAATATGTGAAGT 57.241 32.000 0.00 0.00 0.00 3.01
705 1136 9.832445 AGTACGTTCAATAATGAATCTAATGGT 57.168 29.630 0.00 0.00 46.67 3.55
712 1143 8.592998 ACGAGAAAGTACGTTCAATAATGAATC 58.407 33.333 21.18 7.65 46.67 2.52
713 1144 8.475331 ACGAGAAAGTACGTTCAATAATGAAT 57.525 30.769 21.18 0.00 46.67 2.57
714 1145 7.595875 TGACGAGAAAGTACGTTCAATAATGAA 59.404 33.333 21.18 0.00 43.18 2.57
716 1147 7.273188 TGACGAGAAAGTACGTTCAATAATG 57.727 36.000 21.18 8.19 42.74 1.90
717 1148 9.745880 ATATGACGAGAAAGTACGTTCAATAAT 57.254 29.630 21.18 11.31 42.74 1.28
719 1150 9.874215 CTATATGACGAGAAAGTACGTTCAATA 57.126 33.333 21.18 11.64 42.74 1.90
720 1151 8.618677 TCTATATGACGAGAAAGTACGTTCAAT 58.381 33.333 21.18 7.86 42.74 2.57
723 1154 9.448294 AAATCTATATGACGAGAAAGTACGTTC 57.552 33.333 12.95 12.95 42.74 3.95
724 1155 9.798994 AAAATCTATATGACGAGAAAGTACGTT 57.201 29.630 0.00 0.00 42.74 3.99
725 1156 9.798994 AAAAATCTATATGACGAGAAAGTACGT 57.201 29.630 0.00 0.00 45.32 3.57
806 1237 7.261325 TCTGCATATTAGAGTTGACTGAAGTC 58.739 38.462 3.41 3.41 44.97 3.01
807 1238 7.175347 TCTGCATATTAGAGTTGACTGAAGT 57.825 36.000 0.00 0.00 0.00 3.01
808 1239 7.697352 CTCTGCATATTAGAGTTGACTGAAG 57.303 40.000 5.84 0.00 37.48 3.02
822 1253 8.621286 CCTCCGTTTTTATTTACTCTGCATATT 58.379 33.333 0.00 0.00 0.00 1.28
823 1254 7.228706 CCCTCCGTTTTTATTTACTCTGCATAT 59.771 37.037 0.00 0.00 0.00 1.78
824 1255 6.540914 CCCTCCGTTTTTATTTACTCTGCATA 59.459 38.462 0.00 0.00 0.00 3.14
825 1256 5.357032 CCCTCCGTTTTTATTTACTCTGCAT 59.643 40.000 0.00 0.00 0.00 3.96
826 1257 4.698304 CCCTCCGTTTTTATTTACTCTGCA 59.302 41.667 0.00 0.00 0.00 4.41
827 1258 4.939439 TCCCTCCGTTTTTATTTACTCTGC 59.061 41.667 0.00 0.00 0.00 4.26
828 1259 6.171213 ACTCCCTCCGTTTTTATTTACTCTG 58.829 40.000 0.00 0.00 0.00 3.35
829 1260 6.370186 ACTCCCTCCGTTTTTATTTACTCT 57.630 37.500 0.00 0.00 0.00 3.24
830 1261 7.099120 TGTACTCCCTCCGTTTTTATTTACTC 58.901 38.462 0.00 0.00 0.00 2.59
831 1262 7.008021 TGTACTCCCTCCGTTTTTATTTACT 57.992 36.000 0.00 0.00 0.00 2.24
832 1263 7.361201 GGTTGTACTCCCTCCGTTTTTATTTAC 60.361 40.741 0.00 0.00 0.00 2.01
833 1264 6.654582 GGTTGTACTCCCTCCGTTTTTATTTA 59.345 38.462 0.00 0.00 0.00 1.40
834 1265 5.474532 GGTTGTACTCCCTCCGTTTTTATTT 59.525 40.000 0.00 0.00 0.00 1.40
835 1266 5.005740 GGTTGTACTCCCTCCGTTTTTATT 58.994 41.667 0.00 0.00 0.00 1.40
836 1267 4.041938 TGGTTGTACTCCCTCCGTTTTTAT 59.958 41.667 0.00 0.00 0.00 1.40
837 1268 3.390639 TGGTTGTACTCCCTCCGTTTTTA 59.609 43.478 0.00 0.00 0.00 1.52
838 1269 2.173143 TGGTTGTACTCCCTCCGTTTTT 59.827 45.455 0.00 0.00 0.00 1.94
839 1270 1.770061 TGGTTGTACTCCCTCCGTTTT 59.230 47.619 0.00 0.00 0.00 2.43
840 1271 1.071228 GTGGTTGTACTCCCTCCGTTT 59.929 52.381 0.00 0.00 0.00 3.60
841 1272 0.683412 GTGGTTGTACTCCCTCCGTT 59.317 55.000 0.00 0.00 0.00 4.44
842 1273 1.190178 GGTGGTTGTACTCCCTCCGT 61.190 60.000 6.70 0.00 0.00 4.69
843 1274 1.189524 TGGTGGTTGTACTCCCTCCG 61.190 60.000 13.99 0.00 37.23 4.63
844 1275 0.323957 GTGGTGGTTGTACTCCCTCC 59.676 60.000 12.74 12.74 35.41 4.30
845 1276 1.349067 AGTGGTGGTTGTACTCCCTC 58.651 55.000 0.00 0.00 0.00 4.30
846 1277 2.708037 TAGTGGTGGTTGTACTCCCT 57.292 50.000 0.00 0.00 0.00 4.20
847 1278 3.181468 GCTATAGTGGTGGTTGTACTCCC 60.181 52.174 0.84 0.00 0.00 4.30
848 1279 3.705072 AGCTATAGTGGTGGTTGTACTCC 59.295 47.826 0.84 0.00 0.00 3.85
849 1280 5.359009 TGTAGCTATAGTGGTGGTTGTACTC 59.641 44.000 0.00 0.00 0.00 2.59
850 1281 5.126707 GTGTAGCTATAGTGGTGGTTGTACT 59.873 44.000 0.00 0.00 0.00 2.73
851 1282 5.346522 GTGTAGCTATAGTGGTGGTTGTAC 58.653 45.833 0.00 0.00 0.00 2.90
852 1283 4.403432 GGTGTAGCTATAGTGGTGGTTGTA 59.597 45.833 0.00 0.00 0.00 2.41
853 1284 3.197116 GGTGTAGCTATAGTGGTGGTTGT 59.803 47.826 0.00 0.00 0.00 3.32
854 1285 3.451178 AGGTGTAGCTATAGTGGTGGTTG 59.549 47.826 0.00 0.00 0.00 3.77
855 1286 3.705072 GAGGTGTAGCTATAGTGGTGGTT 59.295 47.826 0.00 0.00 0.00 3.67
856 1287 3.297736 GAGGTGTAGCTATAGTGGTGGT 58.702 50.000 0.00 0.00 0.00 4.16
857 1288 2.628657 GGAGGTGTAGCTATAGTGGTGG 59.371 54.545 0.00 0.00 0.00 4.61
858 1289 3.567397 AGGAGGTGTAGCTATAGTGGTG 58.433 50.000 0.00 0.00 0.00 4.17
859 1290 3.975479 AGGAGGTGTAGCTATAGTGGT 57.025 47.619 0.00 0.00 0.00 4.16
860 1291 4.215908 TGAAGGAGGTGTAGCTATAGTGG 58.784 47.826 0.00 0.00 0.00 4.00
947 1378 7.075741 GCGAAGTTAAGAGAGAGAGACATATC 58.924 42.308 0.00 0.00 0.00 1.63
962 1393 3.665173 GCAGAGGAATGCGAAGTTAAG 57.335 47.619 0.00 0.00 36.28 1.85
1179 1616 4.790962 CAGCCGCTGCCTGACCAT 62.791 66.667 7.61 0.00 38.69 3.55
1332 1805 0.735287 GCCCCTTGTAAGACGACGAC 60.735 60.000 0.00 0.00 0.00 4.34
1530 2015 4.803426 GAGTCGCCGGTGCTCCAG 62.803 72.222 21.59 0.00 34.43 3.86
1590 2078 2.670148 GCCCTCCCAGGTGTACAGG 61.670 68.421 0.00 0.00 31.93 4.00
1626 2114 4.326227 AGCCCCCTGGACCACGTA 62.326 66.667 0.00 0.00 0.00 3.57
1920 2474 2.410262 CGTGTCTTCACATTTCAGCGTC 60.410 50.000 0.00 0.00 44.02 5.19
2083 2667 0.539051 ATCGTCTCTCCAGGCCTTTG 59.461 55.000 0.00 0.00 0.00 2.77
2130 2714 2.302733 TCCAAGTTGCAGACAGAGCATA 59.697 45.455 0.00 0.00 42.33 3.14
2221 2826 1.083489 TTTCCGCCGTGCAGAATTAG 58.917 50.000 0.00 0.00 0.00 1.73
2229 2834 2.844122 AATTTAGATTTCCGCCGTGC 57.156 45.000 0.00 0.00 0.00 5.34
2230 2835 4.728534 TGAAAATTTAGATTTCCGCCGTG 58.271 39.130 0.00 0.00 36.23 4.94
2233 2838 6.156519 ACTGTTGAAAATTTAGATTTCCGCC 58.843 36.000 0.00 0.00 36.23 6.13
2235 2840 8.699749 GGAAACTGTTGAAAATTTAGATTTCCG 58.300 33.333 0.00 0.00 36.23 4.30
2550 6004 2.125991 TGGTTACCGCGCTAACCG 60.126 61.111 28.98 7.47 46.19 4.44
2556 6010 1.669211 GGAGATATCTGGTTACCGCGC 60.669 57.143 10.74 0.00 0.00 6.86
2575 6029 0.678950 AAAAATCTTGTGGGGCACGG 59.321 50.000 0.00 0.00 37.14 4.94
2594 6048 8.610896 CAAGGTTTTTGATTCTGTATGCAAAAA 58.389 29.630 0.00 0.00 43.68 1.94
2623 6077 7.184161 TCCCAACTGTATACCTGAGTAGTAAA 58.816 38.462 0.00 0.00 0.00 2.01
2624 6078 6.734532 TCCCAACTGTATACCTGAGTAGTAA 58.265 40.000 0.00 0.00 0.00 2.24
2638 6304 1.483415 GGCGTAATCCTCCCAACTGTA 59.517 52.381 0.00 0.00 0.00 2.74
2817 6492 6.431198 ACAATATACCCGTGTTGAATGAAC 57.569 37.500 0.00 0.00 34.84 3.18
2829 6504 2.912771 TGCTGACCAACAATATACCCG 58.087 47.619 0.00 0.00 0.00 5.28
2831 6506 4.640201 ACACATGCTGACCAACAATATACC 59.360 41.667 0.00 0.00 0.00 2.73
2934 6691 9.698309 CAAGTTACTCGATGACATCCTTATAAT 57.302 33.333 9.87 0.00 0.00 1.28
3258 7088 6.821160 TCATAAACTGGTCATCTTGCGATAAA 59.179 34.615 0.00 0.00 0.00 1.40
3368 7348 1.680735 GTGTTGGGTGAGACATGCAAA 59.319 47.619 0.00 0.00 0.00 3.68
3701 7801 8.624776 GGAGCTCAAGCAACAGTTAATAATTAT 58.375 33.333 17.19 0.00 45.16 1.28
3702 7802 7.067008 GGGAGCTCAAGCAACAGTTAATAATTA 59.933 37.037 17.19 0.00 45.16 1.40
3703 7803 6.127619 GGGAGCTCAAGCAACAGTTAATAATT 60.128 38.462 17.19 0.00 45.16 1.40
3704 7804 5.358160 GGGAGCTCAAGCAACAGTTAATAAT 59.642 40.000 17.19 0.00 45.16 1.28
3705 7805 4.700213 GGGAGCTCAAGCAACAGTTAATAA 59.300 41.667 17.19 0.00 45.16 1.40
3706 7806 4.019321 AGGGAGCTCAAGCAACAGTTAATA 60.019 41.667 17.19 0.00 45.16 0.98
3707 7807 3.084786 GGGAGCTCAAGCAACAGTTAAT 58.915 45.455 17.19 0.00 45.16 1.40
3783 7883 4.330894 GGTTTTGTAGGCGGTACTAATCAC 59.669 45.833 0.00 0.00 32.19 3.06
3794 7898 6.927933 CAAAATAAGAAGGTTTTGTAGGCG 57.072 37.500 0.00 0.00 39.34 5.52
3902 8009 4.452795 TGTCATCGGAAGTCGCAAAATAAA 59.547 37.500 0.00 0.00 39.05 1.40
3983 8098 6.094719 AGGAAATTAATCCGCCGTTAAAAAC 58.905 36.000 0.00 0.00 44.60 2.43
3991 8106 4.275936 AGATTGAAGGAAATTAATCCGCCG 59.724 41.667 0.00 0.00 44.60 6.46
4100 8239 9.638239 AAATCGAAACTGCATATACAAACAATT 57.362 25.926 0.00 0.00 0.00 2.32
4201 8340 7.541783 TCGATTTTAATTTTCTCCGTAGAACGA 59.458 33.333 0.15 0.00 46.05 3.85
4367 8530 7.629222 GCCTACTCAAAACATGAACATAGCATT 60.629 37.037 0.00 0.00 37.67 3.56
4384 8556 4.870426 GTCGATTTCAATCTGCCTACTCAA 59.130 41.667 0.00 0.00 33.24 3.02
4387 8559 4.437239 CTGTCGATTTCAATCTGCCTACT 58.563 43.478 0.00 0.00 33.24 2.57
4795 8994 0.959372 CTGTGCCTGGAAGCAGAAGG 60.959 60.000 0.00 0.00 45.14 3.46
4869 9078 9.788889 TCATCTCAGATCATACATTTAGCATTT 57.211 29.630 0.00 0.00 0.00 2.32
4870 9079 9.961264 ATCATCTCAGATCATACATTTAGCATT 57.039 29.630 0.00 0.00 0.00 3.56
4871 9080 9.961264 AATCATCTCAGATCATACATTTAGCAT 57.039 29.630 0.00 0.00 0.00 3.79
4872 9081 9.216117 CAATCATCTCAGATCATACATTTAGCA 57.784 33.333 0.00 0.00 0.00 3.49
4873 9082 9.433153 TCAATCATCTCAGATCATACATTTAGC 57.567 33.333 0.00 0.00 0.00 3.09
4971 9187 1.956477 TGCTGCCTTCTTCTTGTTTCC 59.044 47.619 0.00 0.00 0.00 3.13
5056 9285 7.532571 CATGCTCAATCTTCTTTGTCATGTTA 58.467 34.615 0.00 0.00 35.92 2.41
5313 9675 4.854173 ACATACATACATTGCCTCCAACA 58.146 39.130 0.00 0.00 32.95 3.33
5434 9807 1.679305 GGAGAGCCGTGAGAGTGGA 60.679 63.158 0.00 0.00 0.00 4.02
5510 9883 4.101790 CGCCAATGCCGGTGACAC 62.102 66.667 1.90 0.00 38.98 3.67
5619 9992 3.075005 CCATCGTCGGGTGGGAGT 61.075 66.667 9.03 0.00 0.00 3.85
5821 11435 4.636648 TCTTTTGAAGCAAGTTACCGAACA 59.363 37.500 0.00 0.00 38.10 3.18
5825 11439 6.879188 TTTTTCTTTTGAAGCAAGTTACCG 57.121 33.333 0.00 0.00 39.88 4.02
5872 14604 7.234355 CCCTTTGAGTGCTTATATATTCCCTT 58.766 38.462 0.00 0.00 0.00 3.95
5885 14617 0.698238 TGGTATGCCCTTTGAGTGCT 59.302 50.000 0.00 0.00 0.00 4.40
6026 14763 8.988064 AAGTGACACGATGATTATCCATATAC 57.012 34.615 0.00 0.00 0.00 1.47
6041 14778 4.175516 ACGAAGTGTTAAAAGTGACACGA 58.824 39.130 0.00 0.00 46.21 4.35


Based at the University of Bristol with support from BBSRC. BBSRC icon Bristol icon

AutoCloner maintained by Alex Coulton.